/*
 * To change this template, choose Tools | Templates
 * and open the template in the editor.
 */
package rnavisualization;

/**
 *
 * @author Elias la Cour
 */
public class RNAVisualization {

    /**
     * @param args the command line arguments
     */
    static String[] sequence;
    static String[] knots;
    public static void main(String[] args) {
        testInput();
        
    }

    private static void testInput() {
        String inSeq =   "U U A G C U C G C C A G U U A G C G A G G U C U G U C C C C A C A C G A C A G A U A A U C G G G U G C A A C U C C C G C C C C U U U U C C G A G G G U C A U C G G A A C C A";
        String inKnots = ": : : : ( ( ( ( ( : : : : : : ) ) ) ) ) : ( ( ( ( ( ( : : : : : : : ) ) ) ) ) ) : : : : ( ( ( ( : : : : : : : ) ) ) ) ( ( ( : : : [ [ [ [ [ [ ) ) ) : : : ] ] ] ] ] ] : : :"; 
        sequence = inSeq.split("\\s");
        knots = inKnots.split("\\s");
//        for (int i = 0; i < sequence.length; i++) {
//            System.out.print(sequence[i]);
//        }
    }
}
